Change Log

All notable changes to this project will be documented in this file.

The format is based on Keep a Changelog, and this project adheres to Semantic Versioning.

[0.6.1] 2024-07-02

Changed

Updated --grid and --grid-args arguments and Snakemake to be compatible with SLURM (#79)

[0.6] 2024-04-19

Added

Hybrid assembly support (#68, #73)
just-yeat-it CLI command for simple paired-end runs (#74)
yeat-auto CLI command for auto-populating the sample section of the config file (#76)
Customize downsample, depth of coverage, and genome size per sample (#77)

[0.5] 2024-01-08

Added

Unicycler algorithm for long-read only assembly (#55)
metaMDBG algorithm for PacBio-HiFi reads (#59)
DRMAA grid support (#65)

Changed

Updated config input file format (#64)

[0.4] 2023-08-23

Added

Input fastq read support:
- Pacbio raw and corrected reads (#47)
- Oxford Nanopore raw, corrected, and HAC reads (#47)
- Single-end Illumina reads (#50)
Support for Nanopore-reads assembly with Flye and Canu (#47, #50)
New assemblers:
- Hifiasm and Hifiasm-meta (#49)

[0.3] 2023-05-20

Added

Support for Bandage (#34)
Support for basic PacBio HiFi-reads assembly with Flye and Canu (#37)

Changed

Config file to enable:
- Support for multi-input samples (#43)
- Running multiple assembly algorithm with labels (#43)

[0.2] 2022-11-09

Added

Support for FastQC (#5)
Support for MEGAHIT (#13)
Support for Unicycler (#14)
Support for assembly configuration file (#16)
Commands to run a short or long test suite (#20)
Custom downsampling flag (#21)
Custom coverage flag (#23)
Custom seed flag (#29)
3.9 Python version pin for exit_on_error parameter and 3.10's incompatibility with SPAdes <v3.15.4 (#23, #29)
Custom genome size flag (#30)

Fixed

Support for uncompressed input files (#31)

[0.1] 2021-12-01

Initial release!